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This page was generated on 2023-04-12 10:55:42 -0400 (Wed, 12 Apr 2023).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo1Linux (Ubuntu 22.04.1 LTS)x86_644.3.0 alpha (2023-04-03 r84154) 4547
nebbiolo2Linux (Ubuntu 20.04.5 LTS)x86_64R Under development (unstable) (2023-02-14 r83833) -- "Unsuffered Consequences" 4333
Click on any hostname to see more info about the system (e.g. compilers)      (*) as reported by 'uname -p', except on Windows and Mac OS X

INSTALL results for sSNAPPY on nebbiolo2


To the developers/maintainers of the sSNAPPY package:
- Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/sSNAPPY.git to reflect on this report. See Troubleshooting Build Report for more information.

- Use the following Renviron settings to reproduce errors and warnings.

Note: If "R CMD check" recently failed on the Linux builder over a missing dependency, add the missing dependency to "Suggests" in your DESCRIPTION file. See the Renviron.bioc for details.

raw results

Package 1992/2207HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
sSNAPPY 1.3.4  (landing page)
Wenjun Liu
Snapshot Date: 2023-04-11 14:00:16 -0400 (Tue, 11 Apr 2023)
git_url: https://git.bioconductor.org/packages/sSNAPPY
git_branch: devel
git_last_commit: 991362f
git_last_commit_date: 2023-03-28 20:16:57 -0400 (Tue, 28 Mar 2023)
nebbiolo1Linux (Ubuntu 22.04.1 LTS) / x86_64  OK    OK    OK  
nebbiolo2Linux (Ubuntu 20.04.5 LTS) / x86_64  OK    OK    OK  

Summary

Package: sSNAPPY
Version: 1.3.4
Command: /home/biocbuild/bbs-3.17-bioc/R/bin/R CMD INSTALL sSNAPPY
StartedAt: 2023-04-12 01:40:03 -0400 (Wed, 12 Apr 2023)
EndedAt: 2023-04-12 01:41:31 -0400 (Wed, 12 Apr 2023)
EllapsedTime: 87.0 seconds
RetCode: 0
Status:   OK  

Command output

##############################################################################
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###
### Running command:
###
###   /home/biocbuild/bbs-3.17-bioc/R/bin/R CMD INSTALL sSNAPPY
###
##############################################################################
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* installing to library ‘/home/biocbuild/bbs-3.17-bioc/R/site-library’
* installing *source* package ‘sSNAPPY’ ...
** using staged installation
** libs
using C++ compiler: ‘g++ (Ubuntu 9.4.0-1ubuntu1~20.04.1) 9.4.0’
using C++11
g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.17-bioc/R/include" -DNDEBUG  -I'/home/biocbuild/bbs-3.17-bioc/R/site-library/Rcpp/include' -I'/home/biocbuild/bbs-3.17-bioc/R/site-library/RcppArmadillo/include' -I/usr/local/include   -fopenmp -fpic  -g -O2  -Wall -c GenePertScore.cpp -o GenePertScore.o
In file included from /home/biocbuild/bbs-3.17-bioc/R/site-library/RcppArmadillo/include/armadillo:26,
                 from /home/biocbuild/bbs-3.17-bioc/R/site-library/RcppArmadillo/include/RcppArmadillo/interface/RcppArmadilloForward.h:57,
                 from /home/biocbuild/bbs-3.17-bioc/R/site-library/RcppArmadillo/include/RcppArmadillo.h:29,
                 from GenePertScore.cpp:2:
/home/biocbuild/bbs-3.17-bioc/R/site-library/RcppArmadillo/include/armadillo_bits/config.hpp:338:86: note: #pragma message: INFO: support for ARMA_DONT_PRINT_ERRORS option has been removed
  338 |   #pragma message ("INFO: support for ARMA_DONT_PRINT_ERRORS option has been removed")
      |                                                                                      ^
/home/biocbuild/bbs-3.17-bioc/R/site-library/RcppArmadillo/include/armadillo_bits/config.hpp:343:75: note: #pragma message: INFO: suggest to use ARMA_WARN_LEVEL option instead
  343 |     #pragma message ("INFO: suggest to use ARMA_WARN_LEVEL option instead")
      |                                                                           ^
/home/biocbuild/bbs-3.17-bioc/R/site-library/RcppArmadillo/include/armadillo_bits/config.hpp:346:61: note: #pragma message: INFO: see the documentation for details
  346 |   #pragma message ("INFO: see the documentation for details")
      |                                                             ^
g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.17-bioc/R/include" -DNDEBUG  -I'/home/biocbuild/bbs-3.17-bioc/R/site-library/Rcpp/include' -I'/home/biocbuild/bbs-3.17-bioc/R/site-library/RcppArmadillo/include' -I/usr/local/include   -fopenmp -fpic  -g -O2  -Wall -c RcppExports.cpp -o RcppExports.o
g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.17-bioc/R/include" -DNDEBUG  -I'/home/biocbuild/bbs-3.17-bioc/R/site-library/Rcpp/include' -I'/home/biocbuild/bbs-3.17-bioc/R/site-library/RcppArmadillo/include' -I/usr/local/include   -fopenmp -fpic  -g -O2  -Wall -c code.cpp -o code.o
g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.17-bioc/R/include" -DNDEBUG  -I'/home/biocbuild/bbs-3.17-bioc/R/site-library/Rcpp/include' -I'/home/biocbuild/bbs-3.17-bioc/R/site-library/RcppArmadillo/include' -I/usr/local/include   -fopenmp -fpic  -g -O2  -Wall -c normaliseByPermutation.cpp -o normaliseByPermutation.o
In file included from /home/biocbuild/bbs-3.17-bioc/R/site-library/RcppArmadillo/include/armadillo:26,
                 from /home/biocbuild/bbs-3.17-bioc/R/site-library/RcppArmadillo/include/RcppArmadillo/interface/RcppArmadilloForward.h:57,
                 from /home/biocbuild/bbs-3.17-bioc/R/site-library/RcppArmadillo/include/RcppArmadillo.h:29,
                 from normaliseByPermutation.cpp:2:
/home/biocbuild/bbs-3.17-bioc/R/site-library/RcppArmadillo/include/armadillo_bits/config.hpp:338:86: note: #pragma message: INFO: support for ARMA_DONT_PRINT_ERRORS option has been removed
  338 |   #pragma message ("INFO: support for ARMA_DONT_PRINT_ERRORS option has been removed")
      |                                                                                      ^
/home/biocbuild/bbs-3.17-bioc/R/site-library/RcppArmadillo/include/armadillo_bits/config.hpp:343:75: note: #pragma message: INFO: suggest to use ARMA_WARN_LEVEL option instead
  343 |     #pragma message ("INFO: suggest to use ARMA_WARN_LEVEL option instead")
      |                                                                           ^
/home/biocbuild/bbs-3.17-bioc/R/site-library/RcppArmadillo/include/armadillo_bits/config.hpp:346:61: note: #pragma message: INFO: see the documentation for details
  346 |   #pragma message ("INFO: see the documentation for details")
      |                                                             ^
g++ -std=gnu++11 -shared -L/home/biocbuild/bbs-3.17-bioc/R/lib -L/usr/local/lib -o sSNAPPY.so GenePertScore.o RcppExports.o code.o normaliseByPermutation.o -fopenmp -L/home/biocbuild/bbs-3.17-bioc/R/lib -lRlapack -L/home/biocbuild/bbs-3.17-bioc/R/lib -lRblas -lgfortran -lm -lquadmath -L/home/biocbuild/bbs-3.17-bioc/R/lib -lR
installing to /home/biocbuild/bbs-3.17-bioc/R/site-library/00LOCK-sSNAPPY/00new/sSNAPPY/libs
** R
** data
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
** checking absolute paths in shared objects and dynamic libraries
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (sSNAPPY)